Software

Some of the software produced by the bioinformatic group at COMAV might be useful from other researchers. We make available with that hope.

Old and unused software

ngs_crumbs

ngs_crumbs ngs_crumbs aims to be a collection of small ngs data processing utilities.

ngs_backbone

ngs_backbone is a bioinformatic application created to work on sequence analysis by using NGS (Next Generation Sequencing) and sanger sequences. It is capable of cleaning reads, do de novo assembly or mapping against a reference and annotate SNPs, SSRs, ORFs, GO terms and sequence descriptions.

clean_reads

clean_reads cleans Next Generation Sequencing reads from the following platforms: 454, Illumina, solid and Sanger.

sff_extract

sff_extract reads the information from the 454 sff files and stores the sequence, quality and adapter clips in fasta and xml files.

EST2uni

EST2uni was a tool similar to backbone, but unable to handle NGS data. EST2uni has been deprecated in favor of ngs_backbone.